EEM package

EEM is an R package for reading and preprocessing fluorescence excitation-emission matrix (EEM). Aside from importing the raw data directly, some preprocessing methods and means to visualize the multivariate analysis results (PCA and PLS) are also provided.

Key features

• Raw data import
  • Hitachi Hi-tech, JASCO, Shimadzu and Horiba Aqualog in any of the .txt, .csv, .xls, .xlsx, .dat formats are currently supported.
  • For unsupported formats, please refer to importing raw files or send request.
• Visualize EEM in a contour
  • (example1, example2: flipped axis)
• Preprocessing EEM data
  • Delete Rayleign scattering rays
  • Cutting unwanted portion of EEM by specifying wavelength range
• Preparing EEM data for multivariate analysis (PCA, PLS)
  • Unfolding from 3d to 2d data matrix
  • Normalizing 2d data matrix
• Viewing multivariate results
  • Loading plots and score plots of PCA
    • Supported packages: prcomp of stats package
  • Loading plots and regression plots of PLS
    • Supported packages: pls package

Manuals

The package vignette is available in English and Japanese. The detailed manual on importing raw files is also available.

The changes during version updates are recorded here.

To install

The stable version:

install.packages("EEM")

The latest development version:

library(devtools) 
install_github("chengvt/EEM", dependencies = TRUE)

If you don't have devtools install yet, you will need to first install it.

install.packages("devtools")